Data Overview

---
title: "HCAMP Paper Version 2"
output: 
  flexdashboard::flex_dashboard:
    orientation: rows
    social: menu
    source_code: embed
    vertical_layout: scroll
    theme: united
---

```{r setup, include=FALSE}
library(flexdashboard)
library(tidyverse)
library(here)
library(janitor)
library(rio)
library(colorblindr)
library(gghighlight)
library(forcats)
library(ggrepel)
library(knitr)
library(kableExtra)
library(reactable)
library(plotly)
library(glue)
library(fs)
library(rstatix)
library(ggpubr)
library(writexl) 
library(remotes)
library(profvis) 


theme_fivethirtyeight <- function(base_size = 15, base_family = "") {
  theme_grey(base_size = base_size, base_family = base_family) %+replace%
    theme(
      
      # Base elements which are not used directly but inherited by others
      line =              element_line(colour = '#DADADA', size = 0.75, 
                                       linetype = 1, lineend = "butt"),
      rect =              element_rect(fill = "#F0F0F0", colour = "#F0F0F0", 
                                       size = 0.5, linetype = 1),
      text =              element_text(family = base_family, face = "plain",
                                       colour = "#656565", size = base_size,
                                       hjust = 0.5, vjust = 0.5, angle = 0, 
                                       lineheight = 0.9),
      
      # Modified inheritance structure of text element
      plot.title =        element_text(size = rel(1.5), family = '' , 
                                       face = 'bold', hjust = -0.05, 
                                       vjust = 1.5, colour = '#3B3B3B'),
      axis.title.x =      element_blank(),
      axis.title.y =      element_blank(),
      axis.text =         element_text(),
      
      # Modified inheritance structure of line element
      axis.ticks =        element_line(),
      panel.grid.major =  element_line(),
      panel.grid.minor =  element_blank(),
      
      # Modified inheritance structure of rect element
      plot.background =   element_rect(),
      panel.background =  element_rect(),
      legend.key =        element_rect(colour = '#DADADA'),
      
      # Modifiying legend.position
      legend.position = 'none',
      
      complete = TRUE
    )
}


theme_set(theme_fivethirtyeight())
```

```{r global, include=FALSE}
#all clean sims data
sims_concussion_data <- read_csv(here("data", "sims_concussion_data.csv"))

sims_concussion_data <- sims_concussion_data %>% 
  mutate(age = as.factor(age))

simsimp <- read_csv(here("data", "clean_impact_sims_data.csv"))

str(simsimp)

simsimp <- simsimp %>% 
  mutate(dataset = as.factor(dataset),
         school_year = as.factor(school_year),
         school = as.factor(school),
         league = as.factor(league),
         gender = as.factor(gender),
         age = as.factor(age),
         sport = as.factor(sport),
         injury = as.factor(injury))

```

```{r, include=FALSE}
#helpful functions 

mean_2 <- function(x) {
  z <- na.omit(x)
  sum(z) / length(z)
}

my_mean <- function(x) {
  mean(x[x >= 0], na.rm = TRUE)
}

create_react_time <- function(df, var) {
    df %>% 
      summarize(Mean = mean({{var}}),
                SD = sd({{var}}),
                Min = min({{var}}),
                Max = max({{var}}),
                Total = length({{var}})) %>% 
      mutate_if(is.numeric, round, 2) %>% 
      reactable(columns = list(
        Mean = colDef(format = colFormat(separators = TRUE, suffix = " days")),
        SD = colDef(format = colFormat(separators = TRUE, suffix = " days")),
        Min = colDef(format = colFormat(separators = TRUE, suffix = " days")),
        Max = colDef(format = colFormat(separators = TRUE, suffix = " days")),
        Total = colDef(format = colFormat(separators = TRUE, suffix = " concussions"))
      ))
}

create_react <- function(df, var) {
    df %>% 
      summarize(Mean = mean({{var}}),
                SD = sd({{var}}),
                Min = min({{var}}),
                Max = max({{var}}),
                Total = length({{var}})) %>% 
      mutate_if(is.numeric, round, 2) %>% 
      reactable(columns = list(
        Mean = colDef(format = colFormat(separators = TRUE)),
        SD = colDef(format = colFormat(separators = TRUE)),
        Min = colDef(format = colFormat(separators = TRUE)),
        Max = colDef(format = colFormat(separators = TRUE)),
        Total = colDef(format = colFormat(separators = TRUE, suffix = " concussions"))
      ))
}


my_mean(simsimp$dys_btwn_onset_test_4)
```


# Data Overview

Row {.tabset}
-----------------------------------------------------------------------

### Sex 

```{r, include=FALSE}
simsimp %>% 
  group_by(gender) %>% 
  summarize(total = n()) %>% 
  arrange(desc(total)) %>% 
  reactable(
    columns = list(
      gender = colDef(name = "Sex",
                      align = "center"),
      total = colDef(name = "Total",
                     align = "center",
                     format = colFormat(suffix = " injuries"))),
    pagination = TRUE,
    striped = TRUE,
    outlined = TRUE,
    compact = TRUE,
    highlight = TRUE,
    bordered = TRUE
    )
```

```{r, include=FALSE}
sims_sex <- simsimp %>% 
  group_by(gender) %>% 
  summarize(total = n()) %>% 
  arrange(desc(total))

sims_sex_plot <- ggplot(sims_sex, aes(fct_reorder(gender, total), total)) +
  geom_col(fill = "blue",
           alpha = 0.7) +
  scale_y_continuous(limits = c(0, 600),
                     breaks = c(0, 200, 400, 600)) +
  coord_flip() +
  labs(x = "",
       y = "Total")
```

```{r, include=TRUE}
ggplotly(sims_sex_plot)
```